mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 137 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,634,017 | 0 | A | T | 76.9% | 4.1 / 11.8 | 26 | I125I (ATT→ATA) ‡ | nohA | NohA |
| * | NC_000913 | 3,941,090 | 0 | T | C | 73.3% | 92.3 / 82.9 | 116 | noncoding (34/76 nt) | gltU | tRNA‑Val |
| * | NC_000913 | 2,460,900 | 1 | . | C | 73.1% | 369.6 / 145.2 | 158 | intergenic (+234/‑132) | fadL/b2345 | FadL/hypothetical protein |
| * | NC_000913 | 580,498 | 0 | G | A | 62.9% | 23.2 / 26.6 | 35 | V148I (GTT→ATT) | nohB | bacteriophage DNA packaging protein |
| * | NC_000913 | 580,429 | 0 | A | G | 59.4% | 35.7 / 33.4 | 32 | I125V (ATT→GTT) | nohB | bacteriophage DNA packaging protein |
| * | NC_000913 | 1,096,579 | 0 | T | C | 58.8% | 5.4 / 13.3 | 17 | intergenic (+527/+209) | ycdU/serX | hypothetical protein/tRNA‑Ser |
| * | NC_000913 | 1,634,019 | 0 | T | C | 58.8% | 30.7 / 37.4 | 34 | I125V (ATT→GTT) ‡ | nohA | NohA |
| * | NC_000913 | 580,425 | 0 | T | A | 58.3% | 57.6 / 66.6 | 48 | G123G (GGT→GGA) | nohB | bacteriophage DNA packaging protein |
| * | NC_000913 | 580,419 | 0 | C | G | 56.6% | 92.5 / 111.7 | 76 | I121M (ATC→ATG) | nohB | bacteriophage DNA packaging protein |
| * | NC_000913 | 580,422 | 0 | A | C | 56.5% | 75.3 / 81.3 | 62 | A122A (GCA→GCC) | nohB | bacteriophage DNA packaging protein |
| * | NC_000913 | 3,192,891 | 0 | C | T | 54.5% | 227.7 / inf | 430 | intergenic (+350/+70) | b3051/b3052 | putative membrane protein/putative kinase |
| * | NC_000913 | 3,192,873 | 0 | T | C | 54.2% | 55.0 / inf | 441 | intergenic (+332/+88) | b3051/b3052 | putative membrane protein/putative kinase |
| * | NC_000913 | 1,949,344 | 0 | G | A | 53.6% | 191.9 / inf | 436 | Q174Q (CAG→CAA) | yecD | hypothetical protein |
| * | NC_000913 | 1,949,359 | 0 | C | T | 52.7% | 190.4 / inf | 462 | I179I (ATC→ATT) | yecD | hypothetical protein |
| * | NC_000913 | 1,949,356 | 0 | T | C | 52.7% | 7.3 / inf | 469 | S178S (AGT→AGC) | yecD | hypothetical protein |
| * | NC_000913 | 1,949,362 | 0 | C | T | 52.3% | 158.2 / inf | 455 | N180N (AAC→AAT) | yecD | hypothetical protein |
| * | NC_000913 | 3,192,625 | 0 | T | A | 51.3% | 53.6 / inf | 485 | intergenic (+84/+336) | b3051/b3052 | putative membrane protein/putative kinase |
| * | NC_000913 | 3,192,626 | 0 | T | C | 51.2% | 72.1 / inf | 484 | intergenic (+85/+335) | b3051/b3052 | putative membrane protein/putative kinase |
| * | NC_000913 | 3,192,647 | 0 | G | C | 51.2% | 36.9 / inf | 463 | intergenic (+106/+314) | b3051/b3052 | putative membrane protein/putative kinase |
| * | NC_000913 | 3,192,635 | 0 | A | G | 50.9% | 79.4 / inf | 475 | intergenic (+94/+326) | b3051/b3052 | putative membrane protein/putative kinase |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207013 = | 187 (0.710) | 70 (0.320) | 56/152 | 5.8 | 30.6% | coding (290/630 nt) | ycfK | hypothetical protein |
| ? | NC_000913 | 1208842 = | 163 (0.750) | coding (40/540 nt) | b1157 | putative tail fiber protein | |||||
| * | ? | NC_000913 | = 1207028 | 190 (0.720) | 69 (0.320) | 51/152 | 6.9 | 30.8% | coding (305/630 nt) | ycfK | hypothetical protein |
| ? | NC_000913 | = 1208825 | 153 (0.710) | coding (57/540 nt) | b1157 | putative tail fiber protein | |||||
| * | ? | NC_000913 | = 3958258 | 10 (0.040) | 101 (0.400) +CCC |
55/174 | 7.8 | 90.8% | intergenic (‑827/‑34) | ppiC/rep | peptidyl‑prolyl cis‑trans isomerase C/rep helicase |
| ? | NC_000913 | 3958259 = | 11 (0.040) | intergenic (‑828/‑33) | ppiC/rep | peptidyl‑prolyl cis‑trans isomerase C/rep helicase | |||||
| * | ? | NC_000913 | = 4008398 | 78 (0.300) | 62 (0.250) +AAGA |
27/172 | 15.6 | 45.1% | coding (481/516 nt) | b4555 | hypothetical protein |
| ? | NC_000913 | 4008399 = | 78 (0.300) | coding (482/516 nt) | b4555 | hypothetical protein | |||||
| * | ? | NC_000913 | = 1208841 | 214 (0.820) | 16 (0.070) | 11/154 | 21.6 | 7.9% | coding (41/540 nt) | b1157 | putative tail fiber protein |
| ? | NC_000913 | 2469917 = | 196 (0.890) | coding (166/519 nt) | yfdL | putative RNA polymerase beta | |||||
| * | ? | NC_000913 | = 3958257 | 90 (0.340) | 9 (0.040) +ACC |
9/178 | 25.0 | 9.4% | intergenic (‑826/‑35) | ppiC/rep | peptidyl‑prolyl cis‑trans isomerase C/rep helicase |
| ? | NC_000913 | 3958258 = | 90 (0.340) | intergenic (‑827/‑34) | ppiC/rep | peptidyl‑prolyl cis‑trans isomerase C/rep helicase | |||||
| * | ? | NC_000913 | = 2392482 | 241 (0.920) | 18 (0.070) +TGGGCG |
6/172 | 26.8 | 7.6% | coding (585/1842 nt) | nuoL | NADH dehydrogenase I chain L |
| ? | NC_000913 | = 2392486 | 225 (0.860) | coding (581/1842 nt) | nuoL | NADH dehydrogenase I chain L | |||||
| * | ? | NC_000913 | = 274135 | NA (NA) | 4 (0.020) | 4/180 | 29.1 | NA | coding (207/1017 nt) | trs51 | IS5 transposase |
| ? | NC_000913 | = 274151 | NA (NA) | coding (191/1017 nt) | trs51 | IS5 transposase | |||||
| * | ? | NC_000913 | = 3796153 | 295 (1.120) | 3 (0.010) | 3/182 | 30.3 | 1.0% | coding (787/1074 nt) | rfaK | putative hexose transferase |
| ? | NC_000913 | = 3796172 | 285 (1.100) | coding (768/1074 nt) | rfaK | putative hexose transferase | |||||